Prolonged exposure of humans and experimental animals to microgravity is known to be associated with a variety of physiological and cellular disturbances. With advancements in aerospace technology and prolonged space flights, both organism and cellular level understanding of the effects of microgravity on cells will become increasingly important in order to ensure the safety of prolonged space travel. To understand these effects at the cellular level, on-line sensor technology for the measurement and control of cell culture processes is required. To do this measurement, multiple sensors must be implemented to monitor various parameters of the cell culture medium. The model analytes used in this study were pH and dissolved oxygen which have physiological importance in a bioreactor environment. In most bioprocesses, pH and dissolved oxygen need to be monitored and controlled to maintain ionic strength and avoid hypoxia or hyperoxia. Current techniques used to monitor the value of these parameters within cell culture media are invasive and cannot be used to make on-line measurements in a closed-loop system. In this research, a microfabricated hydrogel microarray sensor was developed to monitor each anlyte. Either a pH or an oxygen sensitive fluorescent agent was immobilized into a hydrogel structure via a soft lithography technique and the intensity image of the sensor varied from the target analyte concentration. A compact detection system was developed to quantify concentration of each analyte based on the fluorescence image of the sensor. The system included a blue LED as an illumination source, coupling optics, interference filters and a compact moisture resistant CCD camera. Various tests were performed for the sensor (sensitivity, reversibility, and temporal/spatial uniformity) and the detection system (temporal/spatial stability for the light source and the detector). The detection system and the sensor were tested with a buffer solution and cell culture media off-line. The standard error of prediction for oxygen and pH detection was 0.7% and 0.1, respectively, and comparable to that of commercial probes, well within the range necessary for cell culture monitoring. Lastly, the system was coupled to a bioreactor and tested over 2 weeks. The sensitivity and stability of the system was affordable to monitor pH and dissolved oxygen and shows potential to be used for monitoring those analytes in cell culture media noninvasively.

Specific detection of biological matter is one of the key elements in a wide range of modern fields such as food industry, medicine, environmental and pharmaceutical industries. Generally, current common methods of detection (e.g. ELISA) involve molecular labelling, requirements for well-trained personnel and lengthy experimental procedures such as bacteria culture. All of the above issues result in high costs for biological analysis, and consequently, high costs for medical service, therapeutic drugs and various food products. Biosensors, on the other hand, can provide quick and cheap solutions to these problems. The field of optical biosensors is dominated by the method of surface plasmon resonance, which so far has attracted a lot of attention in the pharmaceutical industry. Investigation of long-range surface plasmon-polariton waveguides as an application for biosensing is still very novel, and most of it exists in the venue of theoretical discussions and modelling. The objective of this thesis is to demonstrate the capability of the novel optical biosensor based on plasmonic waveguides to selectively detect various biological entities in solutions. The experiments were conducted on photolithographically fabricated sensors consisting of straight gold waveguides embedded in low-refractive index fluoropolymer CYTOP and a microfluidic channel. As a proof-of-concept, a demonstration of basic sensing experiments such as detection of change in refractive index of bulk solution and non-specific adsorption of bovine serum albumin is provided. Further investigation of the sensor capabilities involved specific detection of human red blood cells and leukemia markers. Red blood cell detection was based on ABO blood grouping and included the estimation of limit of detection and signal-to-noise ratio for single cell detection. Finally, a clinically relevant problem of B-cell leukemia marker detection was targeted. The sensor demonstrated the ability to detect the relative abundance of similar proteins (immunoglobulin kappa and lambda) in a complex fluid (human serum). In addition, an experimental study on the optimization of the sensor for sensitivity was conducted.

This research proposes a novel polymer-based optical waveguide made with Polydimethylsiloxane (PDMS) for optical detection applications. Alternative to other fiber-based sensor, the proposed optical sensor uses PDMS waveguide as the main sensing component. PDMS has excellent optical properties which is essential for bio-photonic detection, including highly optical transparency, good flexibility and high bio-compatibility. Uncured PDMS polymer is cast in a Teflon tubing to form the PDMS rod. Since the reflective index of PDMS is as high as 1.43, that the bare PDMS can be an optical waveguide while the reflective index of the surrounding media is smaller than 1.43. The cast PDMS waveguide is then connect with plastic optical fibers to form the proposed optical waveguide system. In order to improve the optical performance of the PDMS waveguide, a surface coating process is used to reduce the surface roughness of the PDMS waveguide. The measured insertion loss with and without performing the surface coating procedure is 1.14 and 1.71dB/cm, respectively. Once the PDMS waveguide is formed, Au nanoparticles (Au-Nps) were coated on the PDMS surface with the assistance of a positive charge polymer of PDDA to form an optical waveguide capable of localized SPR detection. In addition, an atmospheric plasma treating process is used to enhance the coating ratio and speed of Au-Nps. UV-VIS spectrum and the SEM observation of the Au-particle coated PDMS waveguide confirm that the plasma treatment process significantly improves the coating results of Au-Nps. Liquid samples with different refractive index were used to demonstrate the LSPR sensing ability of the fabricated optical waveguide. The label free DNA detection was demonstrated by the system. The thiolated single strand DNA was modify on the PDMS optical waveguide as a DNA probe and bound with target DNA by DNA hybridization. The detection limit is as low as 10 pM. This research provides a simple and fast fabrication method to fabricate waveguide-based LSPR sensors.

Three major topics will be discussed in this dissertation. The first is an optical biosensor for specific diagnosis of bacterial skin and wound infection, followed by a paper microfluidic assay and accompanying monitoring device for monitoring blood coagulation and determining patient-specific heparin and protamine dosing. The final work to be discussed is ongoing work involving the detection of circulating tumor cells (CTCs) using a paper microfluidic detection platform. All of these works involve the development of biosensors for the simultaneous advancement and simplification of diagnosis and analysis of blood and bacterial infection. The aims of each of these projects included significantly decreasing the time to diagnosis and decreasing the reagents, laboratory space, personnel, and other resources needed for detection and diagnosis. The first works are focused on the design, development, and testing of an optical biosensor for the immediate detection of bacterial skin and wound infection, including diagnosing the specific species of bacteria responsible for the infection. The optical biosensor developed allows for diagnosis of a bacterial infection on skin or in a wound in as little as three seconds, in a contact-free, reagent-free manner. The second work focused on the design, development, and testing of a paper microfluidic assay and accompanying Raspberry Pi-based monitoring device for use before, during, and after surgeries requiring the use of cardiopulmonary bypass. The assay monitors the extent of blood coagulation of a whole blood sample and determines patient-specific dose response curves of an anticoagulant and its reversal agent. The final work discussed focuses on developing a paper microfluidic assay for the detection of CTCs from whole blood samples. The goal of this work is to detect multiple morphologies of CTCs from whole blood samples to provide insight on patient prognosis in a rapid, low resource manner.

Naturally occurring biological nanoparticles (BNPs) and synthetic nanoparticles have a significant role in a wide range of biomedical applications. For instance, direct detection of BNPs, such as viruses, can provide new methods of viral diagnostics while synthetic particles can be used as labels to indirectly detect biomarkers for drug discovery. Therefore, developing advanced tools for nanoparticle detection has gained popularity in biotechnological research. One of the most exciting recent developments in BNP detection has been single particle (or digital) counting of individual particles which offers unprecedented sensitivity levels. However, standard optical techniques face a significant challenge for nanoparticle detection, due the weak optical contrast of sub-wavelength particles. Interferometric microscopy, overcomes the limitations imposed by particle size which allows for visualizing unresolved (diffraction-limited) optical signatures of sub-wavelength particles. Single-particle interferometric reflectance imaging sensor (SP-IRIS), is a widefield microscopy platform, developed by our group over the last years. SP-IRIS uses interferometric enhancement and a layered substrate to increase the optical contrast for the target particles of interest. While this microscopy technique has shown remarkable sensitivity levels for numerous applications including detection of viral particles and nucleic acids, it has remained a specialty tool due to the utilization of z-scan measurements for extracting the optical signature of particles. The z-scan measurements that consist of multiple frames acquired at different focal positions impose two major drawbacks. The first is the requirement of repeatable and high resolution scanning optics and the second is the time and computational processing power required to analyze the image stacks. In this thesis we describe a novel imaging method termed `pixel-diversity‘ IRIS (PD-IRIS), which aims to provide a more practical detection method for nanoparticles by eliminating the need for acquiring z-stacks. PD-IRIS is built upon SP-IRIS, however it introduces a paradigm shift for encoding the necessary optical signature of target particles. PD-IRIS compresses the relevant optical information within a single image frame rather than an image stack. This is achieved by using camera sensors that simultaneously record multiple spectral or polarization channels. Therefore, a single image can record distinct spectral responses of target particles with respect to different excitation wavelengths (multi-spectral PD-IRIS) or the distinct scattering characteristics with respect to polarization (polarization PD-IRIS). This dissertation presents a rigorous study for both PD-IRIS modes and demonstrates the practical applications of nanoparticle detection with proof-of-concept measurements. / 2024-01-16T00:00:00Z

Les laboratoires sur puce visent à miniaturiser et à intégrer les fonctions couramment utilisées dans les laboratoires d'analyse afin de cibler des applications en santé avec un impact prometteur sur le diagnostic médical au lit du patient. Les membranes poreuses sont d'un grand intérêt pour la préparation et l'analyse d'échantillon sur puce car elles permettent la séparation par taille/charge de molécules, mais également leur pré-concentration. Parmi les matériaux disponibles pour constituer des membranes poreuses, le silicium poreux présente de nombreux avantages tels que le contrôle précis de la taille des pores et de la porosité, une chimie de surface pratique et des propriétés optiques uniques. Les membranes de silicium poreux sont généralement intégrées dans des puces fluidiques en les montant entre deux couches comportant des micro-canaux, formant ainsi des réseaux fluidiques à trois dimensions, peu pratiques et peu adaptés à l'observation directe par microscopie. Dans ces travaux de thèse, nous avons développé deux méthodes de fabrication de membranes de silicium à pores latéraux qui permettent leur intégration monolithique dans des systèmes microfluidiques planaires. Le premier procédé est fondé sur l'utilisation d'électrodes localement structurées afin de guider la formation de pores de manière horizontale, en combinaison avec des substrats type silicium sur isolant (SOI) pour localiser spatialement la formation de silicium poreux dans la profondeur du canal. La deuxième méthode repose sur le fait que la formation de silicium poreux par anodisation est fortement dépendante du type de dopant et de sa concentration. Bien que nous utilisons encore le même type d'électrodes structurées sur les parois latérales de la membrane pour injecter le courant lors de l'anodisation, le dopage par implantation permet de confiner la membrane, de façon analogue mais à la place de l'oxyde enterré du SOI. Des membranes à pores latéraux ont été fabriquées par ces deux méthodes et leur fonctionnalité a été démontrée en réalisant des expériences de filtrage. En plus de la filtration d'échantillon, les membranes ont été utilisées pour étudier la possibilité d'effectuer de la pré-concentration électrocinétique et de la détection interférométrique. La sélectivité ionique des membranes microporeuse permet la pré-concentration moléculaire avec des facteurs de concentration pouvant atteindre jusqu'à 103 en 10 min en appliquant moins de 9 V. Ces résultats sont comparables à ceux rapportés dans la littérature à l'aide par exemple de nanocanaux avec une consommation d'énergie beaucoup plus faible. Enfin, nous avons pu détecter une variation de l'indice de réfraction du silicium poreux par le décalage du spectre d'interférence lors du chargement de différents liquides injectés dans les membranes. Le travail présenté dans cette thèse constitue la première étape dans la démonstration de l'intérêt du silicium poreux pour la préparation d'échantillon et la biodétection dans des laboratoires sur puce planaires. / Lab on a chip devices aim at integrating functions routinely used in medical laboratories into miniaturized chips to target health care applications with a promising impact foreseen in point-of-care testing. Porous membranes are of great interest for on-chip sample preparation and analysis since they enable size- and charge-based molecule separation, but also molecule pre-concentration by ion concentration polarization. Out of the various materials available to constitute porous membranes, porous silicon offers many advantages, such as tunable pore properties, large porosity, convenient surface chemistry and unique optical properties. Porous silicon membranes are usually integrated into fluidic chips by sandwiching fabricated membranes between two layers bearing inlet and outlet microchannels, resulting in three-dimensional fluidic networks that lack the simplicity of operation and direct observation accessibility of planar microfluidic devices. To tackle this constraint, we have developed two methods for the fabrication of lateral porous silicon membranes and their monolithic integration into planar microfluidics. The first method is based on the use of locally patterned electrodes to guide pore formation horizontally within the membrane in combination with silicon-on-insulator (SOI) substrates to spatially localize the porous silicon within the channel depth. The second method relies on the fact that the formation of porous silicon by anodization is highly dependent on the dopant type and concentration. While we still use electrodes patterned on the membrane sidewalls to inject current for anodization, the doping via implantation enables to confine the membrane analogously to but instead of the SOI buried oxide box. Membranes with lateral pores were successfully fabricated by these two methods and their functionality was demonstrated by conducting filtering experiments. In addition to sample filtration, we have achieved electrokinetic pre-concentration and interferometric sensing using the fabricated membranes. The ion selectivity of the microporous membrane enables to carry out sample pre-concentration by ion concentration polarization with concentration factors that can reach more than 103 in 10 min by applying less than 9 V across the membrane[TL1]. These results are comparable to what has already been reported in the literature using e.g. nanochannels with much lower power consumption. Finally, we were able to detect a change of the porous silicon refractive index through the shift of interference spectrum upon loading different liquids into the membrane. The work presented in this dissertation constitutes the first step in demonstrating the interest of porous silicon for all-in-one sample preparation and biosensing into planar lab on a chip.

Abstract Integrated optical (IO) sensor allowing sensitive, label-free, real-time and multi-parameter monitoring of bio-molecular interactions are conventionally fabricated with inorganic dielectrics inherited from CMOS manufacturing technology. Polymers as complement materials to inorganic dielectrics are becoming to have an increasing market share for IO circuits in optical communications networks owing to its good optical properties, versatile processibility and low cost. This work aims at developing disposable low-cost biosensors based mainly on polymeric materials, with a performance comparable to inorganic-dielectric based IO biosensors. This thesis describes the development of polymer IO biosensors based on the Young interferometer (YI) transducer platform for ambient noise compensation and a complete periodic intensity fringe pattern. Three different waveguide configurations were utilized, taking into consideration operational simplicity, fabrication simplicity and enhanced sensitivity. Among the developed polymer biosensors, an unconventional interferometer structure: a vertically placed dual-slab waveguide interferometer and an inverted rib waveguide configuration were employed. To enhance the sensitivity of the waveguides, deposition of Ta2O5 high index coating was performed on the rib waveguide configuration. Along with the development of polymer biosensors based on the inverted-rib waveguide configuration, a fabrication process was also developed featuring UV-imprinting and spin coating. The simple two-step fabrication process demonstrated using a polymer mold is potentially transferable to the roll-to-roll manufacture process. Calibration of the developed sensors was performed by homogeneous refractive index (RI) sensing with glucose de-ionized water solutions. By investigating an antibody – antigen binding interaction involving C-reactive protein and its conjugates, this thesis confirmed the applicability of the developed sensors to specific molecule detection. Moreover, to establish the influence of water molecular absorption on measurement stability, an evaluation was carried out on the polymeric waveguide. Finally, the thesis presented a comparison between the developed sensors, exploring their sensitivities, stabilities, limits of detection (LODs) and other aspects related to operation and fabrication. The results indicated that the Ta2O5-coated polymer waveguide sensor had a high sensing capability. In homogeneous RI sensing, the achieved detection limits were 9×10-7 RIU (refractive index unit), i.e., three times the noise level, and 270 fg/mm2 for surface mass density. / Tiivistelmä Integroidulla optiikalla toteutetut anturit mahdollistavat biomolekulaarisen vuorovaikutuksen tutkimisen käyttäen herkkiä moniparametrisia ja merkkiaineettomia menetelmiä. Näiden bioantureiden valmistukseen käytetään tavallisesti CMOS-teknologian piiristä tuttuja epäorgaanisia puolijohteita ja eristemateriaaleja. Viime aikoina on kuitenkin polymeeristen materiaalien käyttöä integroidussa optiikassa tutkittu merkittävästi johtuen polymeerien hyvistä optisista ominaisuuksista, monipuolisesta työstettävyydestä ja edullisista kustannuksista. Tämän työn tarkoituksena on kehittää edullisia, kertakäyttöisiä, pääasiallisesti polymeerisistä materiaaleista valmistettuja bioantureita, jotka vastaavat suorituskyvyltään epäorgaanisista materiaaleista valmistettuja integroidun optiikan antureita. Tässä työssä kehitetyt polymeeriset integroidun optiikan bioanturit perustuvat Youngin interferometriin mahdollistaen ympäristökohinan kompensoinnin ja ne tuottavat pintavuorovaikutusten tutkimiseen jaksoittaisen interferenssikuvion. Työssä hyödynnettiin kolmea erilaista valokanavarakennetta huomioiden niiden käytön helppous, valmistuksen yksinkertaisuus ja mittausherkkyys. Yksi kehitetyistä polymeerisistä bioantureista koostui päällekkäisistä kerrostetuista polymeerikerroksista. Toisen tutkitun rakenteen toiminta puolestaan perustui käänteiseen harjannevalokanavaan. Mittausherkkyyttä parannettiin pinnoittamalla polymeerirakenne Ta2O5-pinnoitteella. Näin muodostui kerrostettu komposiittivalokanava, joka oli tässä työssä tutkittu kolmas sensorirakenne. Itse bioanturien lisäksi kehitettiin myös valmistusprosessi, jossa hyödynnettiin UV-painatusta ja nestefaasipinnoitusta. Tässä työssä havaittiin lisäksi, että kehitetty yksinkertainen valmistusmenetelmä on paitsi toimiva, myös mahdollisesti siirrettävissä rullalta rullalle valmistus- ja tuotantoteknologiaan. Kehitettyjen anturien kalibrointi suoritettiin homogeenisella taitekerroinmittauksella käyttäen liuoksia, jotka valmistettiin glukoosista ja deionisoidusta vedestä. Kehitettyjen anturien soveltuvuus spesifien molekyylien tunnistamista varten todennettiin tutkimalla vasta-aineiden ja antigeenien sitoutumisreaktioita ja vuorovaikutusta C-reaktiivisella proteiinilla ja sen konjugaateilla. Lisäksi työssä tutkittiin veden absorption vaikutusta mittauksen stabiilisuuteen. Tutkimuksessa suoritettiin vertailu kehitettyjen anturien ja niiden ominaisuuksien välillä kiinnittäen huomiota mittausherkkyyteen, stabiilisuuteen, määritys- ja toteamisrajoihin ja muihin anturien valmistukseen sekä käyttöön liittyviin keskeisiin piirteisiin. Tulokset osoittavat, että Ta2O5-pinnoitetun polymeerivalokanavan mittausherkkyys oli suurin vertailluista rakenteista. Homogeenisessä taitekerroinmittauksessa saavutettu määritys- ja toteamisraja oli 9×10-7 taitekerroinyksikköä (RIU). Pintamassatiheysmittauksessa saavuttu tulos oli 270 fg/mm2.

[ES] Los biosensores son dispositivos analíticos con aplicabilidad en diferentes campos y con numerosas ventajas frente a otros métodos analíticos convencionales, como son el uso de pequeños volúmenes de muestra y reactivos, su sensibilidad y su rápida respuesta, sin necesidad de pretratamiento de la muestra, equipos caros o personal especializado. Sin embargo, se trata de un campo de investigación relativamente nuevo en el que todavía queda mucho camino por andar. Esta Tesis doctoral pretende aportar un granito de arena a este campo de conocimiento mediante el estudio del potencial de diferentes materiales porosos como transductores para el desarrollo de biosensores ópticos con respuesta en tiempo real y sin marcajes. Los materiales propuestos van desde aquellos artificialmente sintetizados, como silicio poroso (SiP), nanofibras (NFs) poliméricas o membranas poliméricas comerciales, hasta materiales naturales con propiedades fotónicas que todavía no habían sido explotadas para el sensado, como son los exoesqueletos de biosílice de diatomeas. Todos ellos tienen en común la simplicidad en su obtención, evitando costosos y laboriosos procesos de nanofabricación. Para su estudio, se analizará su respuesta óptica y, en aquellos casos en los que ésta permita llevar a cabo experimentos de detección, se desarrollarán estrategias para su biofuncionalización y su implementación en experimentos de biosensado. En el caso del SiP y las NFs se han optimizado los parámetros de fabricación para obtener una respuesta óptica adecuada que permita su interrogación. A continuación, se ha llevado a cabo su biofuncionalización empleando métodos covalentes y no covalentes, así como diferentes bioreceptores (aptámeros de ADN y anticuerpos) para estudiar su potencial y sus limitaciones como biosensores. En el caso de las membranas comerciales y el exoesqueleto de sílice de diatomeas, se ha caracterizado su respuesta óptica y se han llevado a cabo experimentos de sensado de índice de refracción para estudiar su sensibilidad. Así mismo, se ha desarrollado un método de funcionalización de la superficie del exoesqueleto de diatomeas basado en el uso de polielectrolitos catiónicos. Como resultado, se ha demostrado el potencial tanto de NFs para el desarrollo de biosensores, como el de membranas comerciales para sensores cuya aplicación no requiera una elevada sensibilidad pero sí un bajo coste. Además, se ha puesto de manifiesto el gran potencial del exoesqueleto de diatomeas para el desarrollo de sensores basados en su respuesta óptica. Por el contrario, las limitaciones encontradas en el desarrollo de biosensores basados en SiP han evidenciado la necesidad de un estudio riguroso y la optimización de la estructura de materiales porosos previamente a ser usados en (bio)sensado. / [CA] Els biosensors són dispositius analítics amb aplicabilitat en diferents camps i amb nombrosos avantatges enfront d'altres mètodes analítics convencionals, com són l'ús de xicotets volums de mostra i reactius, la seua sensibilitat i la seua ràpida resposta, sense necessitat de pretractament de la mostra, equips cars o personal especialitzat. No obstant això, es tracta d'un camp d'investigació relativament nou en el qual encara queda molt camí per fer. Aquesta Tesi doctoral pretén aportar el seu òbol a aquest camp de coneixement mitjançant l'estudi del potencial de diferents materials porosos com a transductors per al desenvolupament de biosensors òptics amb resposta en temps real i sense marcatges. Els materials proposats van des d'aquells artificialment sintetitzats, com a silici porós (SiP), nanofibras (NFs) polimèriques o membranes polimèriques comercials, fins a materials naturals amb propietats fotòniques que encara no havien sigut explotades per al sensat, com són els exoesquelets de biosílice de diatomees. Tots ells tenen en comú la simplicitat en la seua obtenció, evitant costosos i laboriosos processos de nanofabricació. Per al seu estudi, s'analitzarà la seua resposta òptica i, en aquells casos en els quals aquesta permeta dur a terme experiments de detecció, es desenvoluparan estratègies per a la seua biofuncionalizació i la seua implementació en experiments de biosensat. En el cas del SiP i les NFs s'han optimitzat els paràmetres de fabricació per a obtenir una resposta òptica adequada que permeta la seua interrogació. A continuació, s'ha dut a terme la seua biofuncionalizació emprant mètodes covalents i no covalents, així com diferents bioreceptors (aptàmers d'ADN i anticossos) per a estudiar el seu potencial i les seues limitacions com a biosensors. En el cas de les membranes comercials i l'exoesquelet de sílice de diatomees, s'ha caracteritzat la seua resposta òptica i s'han dut a terme experiments de sensat d'índex de refracció per a estudiar la seua sensibilitat. Així mateix, s'ha desenvolupat un mètode de funcionalizació de la superfície de l'exoesquelet de diatomees basat en l'ús de polielectròlits catiònics. Com a resultat, s'ha demostrat el potencial tant de NFs per al desenvolupament de biosensors, com el de membranes comercials per a sensors amb una aplicació que no requerisca una elevada sensibilitat però sí un baix cost. A més, s'ha posat de manifest el gran potencial de l'exoesquelet de diatomees per al desenvolupament de sensors basats en la seua resposta òptica. Per contra, les limitacions trobades en el desenvolupament de biosensors basats en SiP han evidenciat la necessitat d'un estudi rigorós i l'optimització de l'estructura dels materials porosos prèviament a ser usats en (bio)sensat. / [EN] Biosensors are analytical devices with application in diverse fields and with several advantages relative to other conventional methods, such as the use of small volumes of sample and reagents, their sensitivity and their fast response, without the need of the sample pretreatment, expensive equipments or specialised technicians. Nevertheless, this is a relatively new research field in which there is a long way to go yet. This doctoral Thesis aims at doing its bit to this field of knowledge by studying the potential of different porous materials as transducers for the development of real-time and label-free optical biosensors. The proposed materials range from those artificially synthesised, such as porous silicon (pSi), polymeric nanofibres (NFs) or commercial polymeric membranes, to natural materials with photonic properties that had not been exploited for sensing yet, such as biosilica exoskeletons of diatoms. All of them have in common its simple production, avoiding expensive and laborious nanofabrication processes. For their study, their optical response will be analysed and, in those cases in which such optical response allows performing detection experiments, strategies for their biofunctionalisation and their implementation in biosensing experiments will be developed as well. Regarding pSi and NFs, the fabrication parameters were optimised to get a suitable optical response for their interrogation. Afterwards, their surface functionalisation was carried out by covalent and non-covalent methods, as well as different bioreceptors (DNA aptamers and antibodies), to study their potential and their constraints as biosensors. Concerning commercial membranes and the biosilica exoskeleton of diatoms, their optical response was characterised and refractive index sensing experiments were carried out to study their sensitivity. Additionally, a biofunctionalisation method for the surface of the diatoms exoskeleton was developed based on the use of cationic polyelectrolytes. As a result, it was demonstrated the potential of NFs for the development of biosensors, as well as the potential of commercial membranes for developing sensors for an application that does not require a high sensitivity but a low cost. Furthermore, the great potential of biosilica exoskeleton of diatoms for the development of sensors based on their optical response has been revealed. By contrast, the constraints found in the development of pSi illustrate the importance of an accurate study and optimisation of porous materials structure before using them for (bio)sensing. / Martínez Pérez, P. (2021). Development and Optimization of Experimental Biosensing Protocols Using Porous Optical Transducers [Tesis doctoral]. Universitat Politècnica de València. https://doi.org/10.4995/Thesis/10251/172541 / TESIS